Sanity check for analytical and numerical vcmax25
T_opt: Predictions - Observations
Formulations
Vcmax, Jmax: Kattge - Kumarathunge
Jmax limtation: Smith - Farquhar
Respiration
Scaling of Rd25
Temperature response
Other setups
Optimal and fixed ci
K19 setup
Simulated PPFD setup
## Computational time for analytical vcmax25 and best model: 5.53 s
Best Model
MNE subset only
Open Question: Smith - Farquhar
- Numerical jmax worsens fit of farquhar because estimated jmax is lower which leads to underestimation of predicted tc_opt. Analytical and prescribed jmax thus create a better fit.
- Using reported ppfd-conditions for experiment leads to a nice fit for farquhar including the 1:1 line in the slope’s CI but has a strongly reduced r^2
T_opt - T_growth
Best Smith
## $plot
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## $df_metrics
## [1] NA
Best Farquhar
## $plot
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## $df_metrics
## [1] NA
Numerical
## $plot
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## $df_metrics
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## Error in optim(par = par, fn = orig.fn, gr = orig.gr, lower = lower, upper = upper, :
## L-BFGS-B needs finite values of 'fn'
## Error in optim(par = par, fn = orig.fn, gr = orig.gr, lower = lower, upper = upper, :
## L-BFGS-B needs finite values of 'fn'
## Error in optim(par = par, fn = orig.fn, gr = orig.gr, lower = lower, upper = upper, :
## L-BFGS-B needs finite values of 'fn'
## Error in optim(par = par, fn = orig.fn, gr = orig.gr, lower = lower, upper = upper, :
## L-BFGS-B needs finite values of 'fn'
## Error in optim(par = par, fn = orig.fn, gr = orig.gr, lower = lower, upper = upper, :
## L-BFGS-B needs finite values of 'fn'
## Error in optim(par = par, fn = orig.fn, gr = orig.gr, lower = lower, upper = upper, :
## L-BFGS-B needs finite values of 'fn'
## $plot
##
## $df_metrics
## [1] NA